[Simnibs-discuss] MagVenture_MC_B70.nii.gz missing from SimNIBS 4?

[Kristoffer Madsen]

1) Yes indeed I think that the intention was to remove both, but
somehow it slipped I guess.
2) Yes we should update the information such that it is more current,
also after some speedups that were done for the FMM implementation of
.ccd files the efficiency issue is hardly a concern anymore.

Thanks for reporting this inconsistency,
Kristoffer

On Wed, 8 Feb 2023 at 20:11, Sean McBride <sean at rogue-research.com> wrote:
>
> Kristoffer, Oula,
>
> OK, I think that clears it up for me, thanks to you both!
>
> I'll change Brainsight to always invoke SimNIBS with a .ccd file, and never a .nii file.
>
> If I might suggest, you way want to:
>
> just remove Magstim_70mm_Fig8.nii.gz too, as it's the only one left anymore.
> update your docs regarding the choice and difference between ccd and nii.
>
> Cheers,
>
> Sean
>
> On 8 Feb 2023, at 14:03, Kristoffer Madsen wrote:
>
> Indeed we did remove the file on purpose mainly just for reducing the
> size of the distribution. The comment regarding preferring .nii.gz
> over .ccd files is somewhat outdated. You will still obtain faster
> stimulations using the .nii.gz files, however the result should be the
> same (or rather extremely similar). The .nii.gz is actually generated
> based on the .ccd file and you can basically recreate the .nii.gz file
> by running the simnibs command "ccd2nifti -i
> legacy_and_other/MagVenture_MC_B70.ccd" I think this file should be
> the same as the old one except for potential numerical precision which
> may differ slightly across platforms and operating systems. If you
> need to "exactly" reproduce the .nii.gz coil you can just use the old
> file if you like.
>
> I hope this answer is sufficient to address your question, otherwise
> let me know, Best,
> Kristoffer
>
> On Wed, 8 Feb 2023 at 16:53, Sean McBride <sean at rogue-research.com> wrote:
>
> Hi all,
>
> In my SimNIBS 3.2.5 installation, there are the following files (with md5 checksum):
>
> ccd-files/Magstim_70mm_Fig8.ccd) = 7054f818a041612c613e8c5ad73a37ec
> ccd-files/Magstim_70mm_Fig8.nii.gz) = fc3cbf340b2d7e68e67ecb52a2e7b110
> ccd-files/MagVenture_MC_B70.ccd) = ad5597208f6c3d1a301efa2267f4cf73
> ccd-files/MagVenture_MC_B70.nii.gz) = 4159ab1bef77ecc2f2cece25d909be0a
>
> In my 4.0 installation, there are:
>
> legacy_and_other/Magstim_70mm_Fig8.ccd) = 7054f818a041612c613e8c5ad73a37ec
> legacy_and_other/Magstim_70mm_Fig8.nii.gz) = fc3cbf340b2d7e68e67ecb52a2e7b110
> legacy_and_other/MagVenture_MC_B70.ccd) = ad5597208f6c3d1a301efa2267f4cf73
>
> It looks like MagVenture_MC_B70.nii.gz is missing. Was it removed deliberately? The docs say that the .nii.gz files should be preferred over the .ccd files [1], so I find this suspicious. I appreciate that it's "legacy", but still...
>
> [1] https://simnibs.github.io/simnibs/build/html/documentation/sim_struct/tmslist.html
>
> Thanks,
>
> Sean
>
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